Gut metagenome associations with extensive digital health data in a volunteer-based Estonian microbiome cohort

Microbiome research is starting to move beyond the exploratory phase towards interventional trials and therefore well-characterized cohorts will be instrumental for generating hypotheses and providing new knowledge. As part of the Estonian Biobank, we established the Estonian Microbiome Cohort which...

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Vydané v:Nature communications Ročník 13; číslo 1; s. 869 - 11
Hlavní autori: Aasmets, Oliver, Krigul, Kertu Liis, Lüll, Kreete, Metspalu, Andres, Org, Elin
Médium: Journal Article
Jazyk:English
Vydavateľské údaje: London Nature Publishing Group UK 15.02.2022
Nature Publishing Group
Nature Portfolio
Predmet:
45
45/22
45/23
631/326/2565/2142
692/308/53/2421
692/699
692/700/155
692/700/478
Anti-Bacterial Agents - therapeutic use
Antibiotics
Databases, Factual
Dysbiosis - chemically induced
Dysbiosis - microbiology
Electronic Health Records
Electronic medical records
Estonia
Feces - microbiology
Gastrointestinal Microbiome - genetics
Humanities and Social Sciences
Humans
Metagenome - genetics
Metagenomics
Microbiomes
multidisciplinary
Pharmaceutical Preparations
Phenotyping
Science
Science (multidisciplinary)
Surveys and Questionnaires
Estonia
ISSN:2041-1723, 2041-1723
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Shrnutí:Microbiome research is starting to move beyond the exploratory phase towards interventional trials and therefore well-characterized cohorts will be instrumental for generating hypotheses and providing new knowledge. As part of the Estonian Biobank, we established the Estonian Microbiome Cohort which includes stool, oral and plasma samples from 2509 participants and is supplemented with multi-omic measurements, questionnaires, and regular linkages to national electronic health records. Here we analyze stool data from deep metagenomic sequencing together with rich phenotyping, including 71 diseases, 136 medications, 21 dietary questions, 5 medical procedures, and 19 other factors. We identify numerous relationships ( n  = 3262) with different microbiome features. In this study, we extend the understanding of microbiome-host interactions using electronic health data and show that long-term antibiotic usage, independent from recent administration, has a significant impact on the microbiome composition, partly explaining the common associations between diseases. Here, the authors present results of the Estonian Microbiome Project, which combines metagenomics and electronic health data from 2500 individuals, expanding microbiome-host interactions in particular with regards to effects of long-term antibiotic usage on the microbiome across diseases.
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SourceType-Scholarly Journals-1
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ISSN:2041-1723
2041-1723
DOI:10.1038/s41467-022-28464-9